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BLI-Research-SynBio-2016-session-2
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Daily Itineraries
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Assignment
Examples of Design Projects
Examples of Synthetic Biology Research Projects
Synthetic Biology, Ethics and Safety
Jim the Teacher
Autumn the TA
Ryan the TA
Nick the TA
Abhinav
Alex T
Alexander
Alexandru
Ananya
Anne
Asia
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Here is the session 2 schedule...Subject to change.
Here's Liz Blaber's email:
e.a.blaber@nasa.gov
Day 1
Morning Lecture:
Introduction PPT
Intro to Biotech PPT
Independent work:
Work on Personal page
Check Out:
Adventures in Synthetic Biology Comic book
Synthetic Biology explained (YouTube)
Decoding Synthetic Biology (YouTube)
The Promise and Perils of Synthetic Biology
Handmade Biology
Introduction to the lab
Lunch (11:00)
Lab (12:30):
Procedures of Genetic Engineering
Gel animation
Molecular Genetics Primer
Bozeman Biology: DNA and RNA - Part 1
Bozeman Biology: DNA and RNA - Part 2
McGraw-Hill Animation: DNA Replication
Bozeman Biology: DNA Replication
Bozeman Biology: Mutations
Protein Synthesis PPT_Autumn.ppt
Details
Download
3 MB
Survey for Autumn
How to use a micropipette.pptx
Details
Download
588 KB
Homework:
Finish personal page
Day 2
Morning Lecture:
Intro to synthetic biology PPT
Engineering Design PPT
Playing God (history of genetic engineering--YouTube)
We may do this later
Independent work:
Check out:
Adventures in Synthetic Biology Comic book
Synthetic Biology explained (YouTube)
Decoding Synthetic Biology (YouTube)
The Promise and Perils of Synthetic Biology
Handmade Biology
and other synbio resources on Resources page
Lunch
Lab (in classroom):
Design challenge PPT
BioBuilder Design Assignment
Homework:
Work on Ethics Response
Day 3
Morning Lecture:
Control and tuning of gene expression PPT
Epigenetics PPT
Gene regulation Robert Tjian
Independent work:
Work on Ethics Response
Personal support time
Lunch
Lab:
Plasmid Extraction
mini-prep isolation of E. coli plasmid
GeneJET_Plasmid_Miniprep.pdf
Details
Download
146 KB
Mini-prep video
Homework:
Day 4
Morning Lecture:
Field Trip
Karp Lab
Independent work:
Lunch
Lab:
Homework:
Day 5
Morning Lecture:
Quorum sensing, two component system and bacterial photography PPT
Quorum Sensing Video
Bonnie Bassler--Tiny Conspiracies
Bonnie Bassler Ted Talk
Independent work:
Work on project or ethics discussion
Investigation of epigenetics
Lunch
Lab:
Ion Exchange Chromatography
Ion Exchange Chromatography video
Homework:
Day 6
Morning Lecture:
Genetic logic switches PPT
Christopher Voigt lecture of bacterial logic
Independent work:
Investigate Ethics and Safety links on SynBio, ethics and safety page.
Work on project
Lunch
Lab:
Southern Blot
Southern Blot 2015
Homework:
Day 7
Morning Lecture:
Chassis Design PowerPoint
Craig Venter synthetic life
George Church on Colbert
Independent work:
Work on project
Lunch
Lab:
Finish Southern Blot
Bacterial transformation
Kim's Bacterial transformation ppt
Bacterial Transformation lab Blue and Green
(updated #222)
Homework:
Day 8
Morning Lecture:
Wired article Easy DNA editing will remake the world
What is CRSPR?
CRISPR Gene editing
America needs to figure out the ethics...
CRISPR could revolutionize ecosystem management
Ecological Implications of Synthetic Biology
Regulating Gene Drives
Gene Drives eLife article
(click pdf icon on the upper right side of the page)
CRISPR Douda lecture
gene drives in mosquitos
CRISPR and human DNA
CRISPR Slides
Independent work:
Work on project
Lunch
Lab:
CRISPR lab link (easier than pdf)
CRISPR video from lab
Homework:
Day 9
Morning Lecture:
Ch31_Figures-Immunology.ppt
Details
Download
14 MB
ELISA
Independent work:
Work on project
Lunch
Lab:
ELISA
http://www.tccbiotech.org/files/documents/BioRad_ELISAmanual.pdf
https://www.youtube.com/watch?v=lNxZxJtvB94
ELISA Animation
ELISA Animation 2
Microarray lab
Homework:
Day 10
Morning Lecture:
Field Trip Museum of Science
Independent work:
Lunch
Lab:
Homework:
Day 11
Morning Lecture:
Jay Keasling on Microbe Engineering
Kristala Prather on Metabolic Engineering
Independent work:
Work on project
Lunch
Lab:
Fish protein electrophoresis
Seafood fraud
How seafood fraud works
If you eat fish...
Day 12
Morning Lecture:
PCR
DNA sequencing
Bioinformatics
BTBioinformatics_and_Evolution_.pptx
Details
Download
3 MB
Independent work:
Work on project
Lunch
Lab:
Finish Fish Protein
PCR PPT
PCR animation (YouTube)
PTCGenotyping-2.docx
Details
Download
8 KB
PrimerDesignTutorial.docx
Details
Download
76 KB
bioinformatics codes-4.docx
Details
Download
189 KB
Bioinformatics Lesson 1.docx
Details
Download
459 KB
Bioinformatics Exercise 2 and 3.docx
Details
Download
101 KB
Bioinformatics exercise 4.docx
Details
Download
138 KB
Bioinformatics Exercise 5.docx
Details
Download
94 KB
Bioinformatics Exercise 6.docx
Details
Download
111 KB
Bioinformatics Exercise 7.docx
Details
Download
69 KB
Bioinformatics Exercise 8.docx
Details
Download
144 KB
Day 13
Morning Lecture:
Work on Project
Independent work:
Work on project
Lunch
Lab:
Finish PCR
Work on Project
Homework:
Day 14
Morning Lecture:
Project Presentations
Lunch
Lab:
Project Presentations
Day 15
Morning Lecture:
Project Presentation
Lunch
Lab:
Project Presentation
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Here is the session 2 schedule...Subject to change.
Here's Liz Blaber's email: e.a.blaber@nasa.gov
Day 1
Morning Lecture:
Introduction PPTIntro to Biotech PPT
Independent work:
Work on Personal pageCheck Out:
Adventures in Synthetic Biology Comic book
Synthetic Biology explained (YouTube)
Decoding Synthetic Biology (YouTube)
The Promise and Perils of Synthetic Biology
Handmade Biology
Introduction to the lab
Lunch (11:00)
Lab (12:30):
Procedures of Genetic EngineeringGel animation
Molecular Genetics Primer
Bozeman Biology: DNA and RNA - Part 1
Bozeman Biology: DNA and RNA - Part 2
McGraw-Hill Animation: DNA Replication
Bozeman Biology: DNA Replication
Bozeman Biology: Mutations
Survey for Autumn
Homework:
Finish personal pageDay 2
Morning Lecture:
Intro to synthetic biology PPTEngineering Design PPT
Playing God (history of genetic engineering--YouTube) We may do this later
Independent work:
Check out:Adventures in Synthetic Biology Comic book
Synthetic Biology explained (YouTube)
Decoding Synthetic Biology (YouTube)
The Promise and Perils of Synthetic Biology
Handmade Biology
and other synbio resources on Resources page
Lunch
Lab (in classroom):
Design challenge PPTBioBuilder Design Assignment
Homework:
Work on Ethics ResponseDay 3
Morning Lecture:
Control and tuning of gene expression PPTEpigenetics PPT
Gene regulation Robert Tjian
Independent work:
Work on Ethics ResponsePersonal support time
Lunch
Lab:
Plasmid Extractionmini-prep isolation of E. coli plasmid
Mini-prep video
Homework:
Day 4
Morning Lecture:
Field Trip Karp Lab
Independent work:
Lunch
Lab:
Homework:
Day 5
Morning Lecture:
Quorum sensing, two component system and bacterial photography PPTQuorum Sensing Video
Bonnie Bassler--Tiny Conspiracies
Bonnie Bassler Ted Talk
Independent work:
Work on project or ethics discussionInvestigation of epigenetics
Lunch
Lab:
Ion Exchange ChromatographyIon Exchange Chromatography video
Homework:
Day 6
Morning Lecture:
Genetic logic switches PPTChristopher Voigt lecture of bacterial logic
Independent work:
Investigate Ethics and Safety links on SynBio, ethics and safety page.Work on project
Lunch
Lab:
Southern BlotSouthern Blot 2015
Homework:
Day 7
Morning Lecture:
Chassis Design PowerPointCraig Venter synthetic life
George Church on Colbert
Independent work:
Work on projectLunch
Lab:
Finish Southern BlotBacterial transformation
Kim's Bacterial transformation ppt
Bacterial Transformation lab Blue and Green (updated #222)
Homework:
Day 8
Morning Lecture:
Wired article Easy DNA editing will remake the worldWhat is CRSPR?
CRISPR Gene editing
America needs to figure out the ethics...
CRISPR could revolutionize ecosystem management
Ecological Implications of Synthetic Biology
Regulating Gene Drives
Gene Drives eLife article (click pdf icon on the upper right side of the page)
CRISPR Douda lecture
gene drives in mosquitos
CRISPR and human DNA
CRISPR Slides
Independent work:
Work on projectLunch
Lab:
CRISPR lab link (easier than pdf)CRISPR video from lab
Homework:
Day 9
Morning Lecture:
ELISA
Independent work:
Work on projectLunch
Lab:
ELISAhttp://www.tccbiotech.org/files/documents/BioRad_ELISAmanual.pdf
https://www.youtube.com/watch?v=lNxZxJtvB94
ELISA Animation
ELISA Animation 2
Microarray lab
Homework:
Day 10
Morning Lecture:
Field Trip Museum of ScienceIndependent work:
Lunch
Lab:
Homework:
Day 11
Morning Lecture:
Jay Keasling on Microbe EngineeringKristala Prather on Metabolic Engineering
Independent work:
Work on projectLunch
Lab:
Fish protein electrophoresisSeafood fraud
How seafood fraud works
If you eat fish...
Day 12
Morning Lecture:
PCRDNA sequencing
Bioinformatics
Independent work:
Work on projectLunch
Lab:
Finish Fish ProteinPCR PPT
PCR animation (YouTube)
Day 13
Morning Lecture:
Work on ProjectIndependent work:
Work on projectLunch
Lab:
Finish PCRWork on Project
Homework:
Day 14
Morning Lecture:
Project PresentationsLunch
Lab:
Project PresentationsDay 15
Morning Lecture:
Project PresentationLunch
Lab:
Project Presentation